SeqArray statistics

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Associated diseases

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SeqArray specifications

Information


Unique identifier OMICS_17295
Name SeqArray
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input format VCF, BCF, BGT
Output format VCF, BCF, BGT
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.20.2
Stability Stable
Requirements
methods, parallel, BiocGenerics, Biobase, IRanges, GenomicRanges, Rsamtools, S4Vectors, GenomeInfoDb, Biostrings, Rcpp, BiocParallel, RUnit, knitr, VariantAnnotation, digest, R(>=3.5.0), SNPRelate, gdsfmt(>=1.10.1), crayon
Maintained Yes

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Documentation


Maintainer


  • person_outline Xiuwen Zheng <>

Publication for SeqArray

SeqArray in publications

 (2)
PMCID: 5737330
PMID: 29220419
DOI: 10.1093/gbe/evx256

[…] rhomap function in ldhat v2.2 ()., all statistical analysis was performed in r v3.3.0 and used the intervals v0.15.1 (), r package version 0.15.1 (https://cran.r-project.org/package=intervals), and seqarray v1.12.9 () seqarray: big data management of whole-genome sequence variant calls. r package version 1.12.9. (http://github.com/zhengxwen/seqarray) packages., in the 48 h blood stage […]

PMCID: 4251976
PMID: 25462855
DOI: 10.1371/journal.pone.0113163

[…] group were chosen based on rna quality (some samples did not meet quality standards as described above) and pooled for deep sequencing. for the sequencing and microarray array, lc science’s seqarray services were utilized (houston, tx). sequencing data has been submitted to gene expression omnibus (accession number gse61747). the following methods were used, as outlined by the service […]


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SeqArray institution(s)
Department of Biostatistics, University of Washington, Seattle, WA, USA; Bioinformatics and Computational Biology, Genentech, Inc., South San Francisco, CA, USA
SeqArray funding source(s)
Supported by NIH Grant GM099568.

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